ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2019
Whole genome sequencing of a MAGIC population identified genomic loci and candidate genes for major fiber quality traits in upland cotton (Gossypium hirsutum L.).
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers, 1 of them a synthesis that pooled it.
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Who cites it
32 citing papers in PubMed, 1 synthesis or guideline pooled it.
- A GWAS identified a major QTL for resistance to Fusarium wilt (Fusarium oxysporum f. sp. vasinfectum) race 4 in a MAGIC population of Upland cotton and a meta-analysis of QTLs for Fusarium wilt resistance.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Pooled it
- Multi-parent mapping reveals epistatic architecture and elite haplotypes for multi-trait improvement in cotton.Genome biology · 2026Article
- CottonGen 2025: a knowledgebase for cotton genomics, genetics, and breeding research.Genetics · 2026Article
- MAGIC populations: a next-generation framework for dissecting complex quantitative traits and accelerating molecular breeding in crops.Frontiers in plant science · 2026Review
- Genome-wide association study identifies key loci and candidate genes for seed vigor in upland cotton (Frontiers in plant science · 2026Article
- Integrative genomic structural variation analysis unveils genetic architecture underlying important traits in Gossypium barbadense.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- QTL Mapping and Candidate Gene Analysis for Cotton Fiber Quality and Early Maturity Using FPlants (Basel, Switzerland) · 2025Article
- Allele and transcriptome mining in Gossypium hirsutum reveals variation in candidate genes at genetic loci affecting cotton fiber quality and textile flammability.BMC plant biology · 2025Article
- A GWAS identified loci and candidate genes associated with fiber quality traits in a new cotton MAGIC population.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Genetic Regulatory Perturbation of Gene Expression Impacted by Genomic Introgression in Fiber Development of Allotetraploid Cotton.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Genome-wide association study of fiber quality traits in US upland cotton (Gossypium hirsutum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Quantitative genomics-enabled selection for simultaneous improvement of lint yield and seed traits in cotton (Gossypium hirsutum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Genome-wide association studies of bundle and single fiber length traits reveal the genetic basis of within-sample variation in upland cotton fiber length.Frontiers in plant science · 2024Article
- A comprehensive overview of cotton genomics, biotechnology and molecular biological studies.Science China. Life sciences · 2023Review
- Flame resistant cotton lines generated by synergistic epistasis in a MAGIC population.PloS one · 2023Article
- Detection of epistasis interaction loci for fiber quality-related trait via 3VmrMLM in upland cotton.Frontiers in plant science · 2023Article
- A first look at the ability to use genomic prediction for improving the ratooning ability of sugarcane.Frontiers in plant science · 2023Article
- Genomic interrogation of a MAGIC population highlights genetic factors controlling fiber quality traits in cotton.Communications biology · 2022Article
- Development of a MAGIC population and high-resolution quantitative trait mapping for nicotine content in tobacco.Frontiers in plant science · 2022Article
- SoyMAGIC: An Unprecedented Platform for Genetic Studies and Breeding Activities in Soybean.Frontiers in plant science · 2022Article
Corrections and comments
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Authors and funding
11 authors.
Funding
Abstract
key messageSignificant associations between candidate genes and six major cotton fiber quality traits were identified in a MAGIC population using GWAS and whole genome sequencing. Upland cotton (Gossypium hirsutum L.) is the world's major renewable source of fibers for textiles. To identify causative genetic variants that influence the major agronomic measures of cotton fiber quality, which are used to set discount or premium prices on each bale of cotton in the USA, we measured six fiber phenotypes from twelve environments, across three locations and 7 years. Our 550 recombinant inbred lines were derived from a multi-parent advanced generation intercross population and were whole-genome-sequenced at 3× coverage, along with the eleven parental cultivars at 20× coverage. The segregation of 473,517 single nucleotide polymorphisms (SNPs) in this population, including 7506 non-synonymous mutations, was combined with phenotypic data to identify seven highly significant fiber quality loci. At these loci, we found fourteen genes with non-synonymous SNPs. Among these loci, some had simple additive effects, while others were only important in a subset of the population. We observed additive effects for elongation and micronaire, when the three most significant loci for each trait were examined. In an informative subset where the major multi-trait locus on chromosome A07:72-Mb was fixed, we unmasked the identity of another significant fiber strength locus in gene Gh_D13G1792 on chromosome D13. The micronaire phenotype only revealed one highly significant genetic locus at one environmental location, demonstrating a significant genetic by environment component. These loci and candidate causative variant alleles will be useful to cotton breeders for marker-assisted selection with minimal linkage drag and potential biotechnological applications.
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